October in preprints
Posted by the Node, on 2 November 2020
Welcome to our monthly trawl for developmental biology (and related) preprints.
The preprints this month are hosted on bioRxiv and arXiv – use these links to get to the section you want.
Developmental biology
| Stem cells, regeneration & disease modelling
Evo-devo & evo
Cell biology
Modelling
Tools & resources
Research practice & education
Developmental biology
| Patterning & signalling
The Almond plumage color pattern is associated with eye pigmentation defects in the domestic pigeon (Columba livia)
Rebecca Bruders, Max Sidesinger, Michael D. Shapiro
A novel juxtamembrane basolateral targeting motif regulates TGF-β receptor signaling in Drosophila
Aidan J. Peterson, Stephen J. Murphy, Melinda G. Mundt, Maryjane Shimell, Edward B. Leof, Michael B. O’Connor
Intermediate Progenitor cells provide a transition between hematopoietic progenitors and their differentiated descendants
Carrie M Spratford, Lauren M Goins, Fangtao Chi, Juliet R Girard, Savannah N Macias, Vivien W Ho, Utpal Banerjee
Conserved and divergent aspects of Robo receptor signaling and regulation between Drosophila Robo1 and C. elegans SAX-3
Trent Daiber, Christine J. VanderZwan-Butler, Greg J. Bashaw, Timothy A. Evans
Cytonemes with complex geometries and composition extend into invaginations of target cells
Brent M. Wood, Valentina Baena, Hai Huang, Mark Terasaki, Thomas B. Kornberg
The Hippo pathway controls myofibril assembly and muscle fiber growth by regulating sarcomeric gene expression
Aynur Kaya-Çopur, Fabio Marchiano, Marco Y. Hein, Daniel Alpern, Julie Russeil, Nuno Miguel Luis, Matthias Mann, Bart Deplancke, Bianca H. Habermann, Frank Schnorrer
Ancestral dietary change alters development of Drosophila larvae through MAPK signalling
Samuel G. Towarnicki, Neil A. Youngson, Susan M. Corley, Jus C. St John, Nigel Turner, Margaret J. Morris, J. William O. Ballard
Non-apoptotic enteroblast-specific role of the initiator caspase Dronc for development and homeostasis of the Drosophila intestine
Jillian L Lindblad, Meghana Tare, Alla Amcheslavsky, Alicia Shields, Andreas Bergmann
Toll-9 interacts with Toll-1 to mediate a feedback loop during apoptosis-induced proliferation in Drosophila
Alicia Shields, Alla Amcheslavsky, Elizabeth Brown, Yingchao Nie, Takahiro Tanji, Y. Tony Ip, Andreas Bergmann
Rspo2 inhibits TCF3 phosphorylation to antagonize Wnt signaling during vertebrate anteroposterior axis specification
Alice H Reis, Sergei Y Sokol
A β-catenin-driven switch in TCF/LEF transcription factor binding to DNA target sites promotes commitment of mammalian nephron progenitor cells
Qiuyu Guo, Albert Kim, Bin Li, Andrew Ransick, Helena Bugacov, Xi Chen, Nils Lindstrom, Aaron Brown, Leif Oxburgh, Bing Ren, Andrew P. McMahon
CLOCK/BMAL1 interferes with segmentation clock oscillation in mouse embryonic organoids
Yasuhiro Umemura, Nobuya Koike, Yoshiki Tsuchiya, Hitomi Watanabe, Gen Kondoh, Ryoichiro Kageyama, Kazuhiro Yagita
BMPR-2 gates activity-dependent stabilization of dendrites during mitral cell remodeling
Shuhei Aihara, Satoshi Fujimoto, Richi Sakaguchi, Takeshi Imai
Enhancer of Zeste Homolog 2 (Ezh2) is essential for patterning of multiple musculoskeletal tissues but dispensable for tendon differentiation
Deepanwita Pal, Scott M Riester, Bashar Hasan, Sara F Tufa, Amel Dudakovic, Douglas R Keene, Andre van Wijnen, Ronen Schweitzer
A novel Golgi-associated Vangl2 translational variant required for PCP regulation in vertebrates
Alexandra Walton, Diego Revinski, Arnauld Sergé, Stéphane Audebert, Luc Camoin, Tania M Puvirajesinghe, Daniel Isnardon, Sylvie Marchetto, Laurent Kodjabachian, Eric Bailly, Jean-Paul Borg
Male sex hormones increase excitatory neuron production in developing human neocortex
Iva Kelava, Ilaria Chiaradia, Laura Pellegrini, Alex T Kalinka, Madeline A Lancaster
Sonic hedgehog signaling directs patterned cell remodeling during cranial neural tube closure
Eric R. Brooks, Mohammed T. Islam, Kathryn V. Anderson, Jennifer A. Zallen
Spinal cord precursors utilize neural crest cell mechanisms to generate hybrid peripheral myelinating glia
Laura Fontenas, Sarah Kucenas
HIFα regulates developmental myelination independent of autocrine Wnt signaling
Sheng Zhang, Yan Wang, Jie Xu, Wenbin Deng, Fuzheng Guo
Metabolic Plasticity drives Development during Mammalian Embryogenesis
Mark S. Sharpley, Fangtao Chi, Utpal Banerjee
Gastruloids generated without exogenous Wnt activation develop anterior neural tissues
Mehmet U. Girgin, Matthias P. Lutolf
BMP signalling facilitates transit amplification in the developing cerebellum
V Rook, P Haldipur, K Millen, RJ Wingate, T Butts
Zebrafish Kit ligands cooperate with erythropoietin to promote erythroid cell expansion
Jana Oltova, Ondrej Svoboda, Olga Machonova, Petra Svatonova, David Traver, Michal Kolar, Petr Bartunek
Self-activation of Wnt signaling in pre-granulosa cells is required for ovarian folliculogenesis
Okiko Habara, Catriona Y. Logan, Masami Kanai-Azuma, Roeland Nusse, Hinako M. Takase
Oleic acid triggers hippocampal neurogenesis by binding to TLX/NR2E1
Prasanna Kandel, Fatih Semerci, Aleksandar Bajic, Dodge Baluya, LiHua Ma, Kevin Chen, Austin Cao, Tipwarin Phongmekhin, Nick Matinyan, William Choi, Alba Jiménez-Panizo, Srinivas Chamakuri, Idris O. Raji, Lyra Chang, Pablo Fuentes-Prior, Kevin R. MacKenzie, Caroline L. Benn, Eva Estébanez-Perpiñá, Koen Venken, David D. Moore, Damian W. Young, Mirjana Maletic-Savatic
Temporal changes in plasma membrane lipid content induce endocytosis to regulate developmental epithelial-to-mesenchymal transition
Michael L. Piacentino, Erica J. Hutchins, Cecelia J. Andrews, Marianne E. Bronner
Onset of taste bud cell renewal starts at birth and coincides with a shift in SHH function.
Erin J. Golden, Eric D. Larson, Lauren A. Shechtman, G. Devon Trahan, Dany Gaillard, Timothy J. Fellin, Jennifer K. Scott, Kenneth L. Jones, Linda A. Barlow
Gpr125 identifies myoepithelial progenitors at tips of lacrimal ducts and is essential for tear film
Elena Spina, Rebecca Handlin, Julia Simundza, Angela Incassati, Muneeb Faiq, Anoop Sainulabdeen, Kevin C Chan, Pamela Cowin
Quantitation analysis by flow cytometry shows that Wt1 is required for development of the proepicardium and epicardium
Christine Biben, Bette Borobokas, Mary Kamala Menon, Lynne Hartley, Richard Paul Harvey, Samir Taoudi, Owen William John Prall
Cardiac Sex Differences are Established Prior to Gonad Formation
Wei Shi, Xinlei Sheng, Kerry M. Dorr, Josiah E. Hutton, Haley A. Davies, Tia D. Andrade, Todd M. Greco, Yutaka Hashimoto, Joel D. Federspiel, Zachary L. Robbe, Xuqi Chen, Arthur P. Arnold, Ileana M. Cristea, Frank L. Conlon
DOT1L methyltransferase regulates the calcium influx in erythroid progenitor cells in response to erythropoietin
Yi Feng, Shaon Borosha, Anamika Ratri, Sami M. Housami, V. Praveen Chakravarthi, Huizhen Wang, Jay L. Vivian, Timothy A Fields, William Kinsey, MA Karim Rumi, Patrick E. Fields
Trophectoderm differentiation to invasive syncytiotrophoblast is induced by endometrial epithelial cells during human embryo implantation
Peter T Ruane, Terence Garner, Lydia Parsons, Phoebe A Babbington, Susan J Kimber, Adam Stevens, Melissa Westwood, Daniel R Brison, John D Aplin
The Endoplasmic Reticulum Proteostasis Regulator ATF6 is Essential for Human Cone Photoreceptor Development
Heike Kroeger, Julia M. D. Grandjean, Wei-Chieh Jerry Chiang, Daphne Bindels, Rebecca Mastey, Jennifer Okalova, Amanda Nguyen, Evan T. Powers, Jeffery W. Kelly, Neil J. Grimsey, Michel Michaelides, Joseph Carroll, R. Luke Wiseman, Jonathan H. Lin
Eomesodermin is functionally conserved between zebrafish and mouse in spite of different mutant phenotypic severities, and controls left/right organiser formation via interlocking feedforward loops
Conor D. Talbot, Mark D. Walsh, Stephen J. Cutty, Randa Elsayed, Ashley E. E. Bruce, Fiona C. Wardle, Andrew C. Nelson
AIBP-CAV1-VEGFR3 axis dictates lymphatic cell fate and controls lymphangiogenesis
Xiaojie Yang, Jun-dae Kim, Qilin Gu, Qing Yan, Jonathan Astin, Philip S Crosier, Pengchun Yu, Stanley G Rockson, Longhou Fang
Buprenorphine exposure alters the development and migration of interneurons in the cortex
Vanesa Nieto-Estevez, Jennifer J. Donegan, Courtney McMahon, Hannah B. Elam, Teresa A. Chavera, Parul Varma, Kelly A. Berg, Daniel J. Lodge, Jenny Hsieh
| Morphogenesis & mechanics
Force-dependent remodeling of a tight junction protein ZO-1 is regulated by phase separation
Noriyuki Kinoshita, Takamasa S. Yamamoto, Naoko Yasue, Toshihiko Fujimori, Naoto Ueno
Girdin regulates dendrite morphogenesis and cilium position in two specialized sensory neuron types in C. elegans
Inna Nechipurenko, Sofia Lavrentyeva, Piali Sengupta
Mapping calcium dynamics in a developing tubular structure
Jorgen Hoyer, Morsal Saba, Daniel Dondorp, Kushal Kolar, Riccardo Esposito, Marios Chatzigeorgiou
Combinatorial patterns of graded RhoA activation and uniform F-actin depletion promote tissue curvature
Marlis Denk-Lobnig, Natalie C Heer, Adam C Martin
The Adaptor Protein Complex 1 limits E-cadherin endocytosis during epithelial morphogenesis
Miguel Ramírez Moreno, Katy Boswell, Natalia A. Bulgakova
Septate junction proteins are required for egg elongation and border cell migration during oogenesis in Drosophila
Haifa Alhadyian, Dania Shoiab, Robert E. Ward IV
Isoform-specific roles of the Drosophila filamin-type protein Jitterbug (Jbug) during development
SeYeon Chung, Thao Phuong Le, Vishakha Vishwakarma, Yim Ling Cheng, Deborah J. Andrew
Collective nuclear behavior shapes bilateral nuclear symmetry for subsequent left-right asymmetric morphogenesis in Drosophila
Dongsun Shin, Mitsutoshi Nakamura, Yoshitaka Morishita, Mototsugu Eiraku, Tomoko Yamakawa, Takeshi Sasamura, Masakazu Akiyama, Mikiko Inaki, Kenji Matsuno
A Diaphanous and Enabled dependent asymmetric actin cable array repositions nuclei during Drosophila oogenesis
Gregory Logan, Brooke M. McCartney
Electrostatic Plasma Membrane Targeting is Essential for Dlg Function in Cell Polarity and Tumorigenesis
Juan Lu, Wei Dong, Yan Tao, Yang Hong
The Pebble/Rho1/Anillin pathway controls polyploidization and axonal wrapping activity in the glial cells of the Drosophila eye
Lígia Tavares, Patrícia Grácio, Raquel Ramos, Rui Traquete, João B. Relvas, Paulo S. Pereira
Attractive internuclear force drives the collective behavior of nuclear arrays in Drosophila embryos
Xiaoxuan Wu, Kakit Kong, Wenlei Xiao, Feng Liu
Statistical validation verifies that enantiomorphic states of cell chirality are determinant dictating the left- or right-handed direction of the hindgut rotation in Drosophila
Tomoki Ishibashi, Mikiko Inaki, Kenji Matsuno
Crumbs and the Apical Spectrin Cytoskeleton Regulate R8 Cell Fate in the Drosophila eye
Jonathan M. Pojer, Shu Kondo, Kieran F. Harvey
Numerical evaluation reveals the effect of branching morphology on vessel transport properties during angiogenesis
Fatemeh Mirzapour-shafiyi, Yukinori Kametani, Takao Hikita, Yosuke Hasegawa, Masanori Nakayama
Actin-based protrusions lead microtubules during stereotyped axon initiation in spinal neurons in vivo
Rachel E. Moore, Sînziana Pop, Caché Alleyne, Jonathan DW Clarke
Apical PAR complex proteins protect against epithelial assaults to create a continuous and functional intestinal lumen
Maria D. Sallee, Melissa A. Pickett, Jessica L. Feldman
Ectoderm to mesoderm transition by downregulation of actomyosin contractility
Leily Kashkooli, David Rozema, Lina Espejo-Ramirez, Paul Lasko, François Fagotto
The versican-hyaluronan complex provides an essential extracellular matrix niche for Flk1+ hematoendothelial progenitors
Sumeda Nandadasa, Anna O’Donnell, Ayako Murao, Yu Yamaguchi, Ronald J Midura, Lorin Olson, Suneel S Apte
Knockout of zebrafish desmin genes does not cause skeletal muscle degeneration but alters calcium flux
Gulsum Kayman Kurekci, Ecem Kural Mangit, Cansu Koyunlar, Seyda Unsal, Berk Saglam, Bora Ergin, Ismail Uyanik, Niloufar Boustanabadimaralan Düz, Beril Talim, Nuhan Purali, Simon M. Hughes, Pervin R. Dincer
Filopodia-based contact stimulated collective migration drives tissue morphogenesis
Maik C. Bischoff, Sebastian Lieb, Renate Renkawitz-Pohl, Sven Bogdan
| Genes & genomes
Trans-generational inheritance of centromere identity requires the CENP-A N-terminal tail in the C. elegans maternal germ line
Reinier F. Prosée, Joanna M. Wenda, Caroline Gabus, Kamila Delaney, Francoise Schwager, Monica Gotta, Florian A. Steiner
Cryptic genetic variation in a heat shock protein shapes the expressivity of a mutation affecting stem cell behaviour in C. elegans
Sneha L. Koneru, Mark Hintze, Dimitris Katsanos, Michalis Barkoulas
Context dependent activation/repression by Hunchback binding sites in Drosophila embryo
Stefano Ceolin, Monika Hanf, Max Schnepf, Christophe Jung, Ulrich Unnerstall, Ulrike Gaul
The Drosophila histone demethylase KDM5 is required during early neurodevelopment for proper mushroom body formation and cognitive function
Hayden A. M. Hatch, Helen M. Belalcazar, Owen J. Marshall, Julie Secombe
The histone demethylase KDM5 is required for synaptic structure and function at the Drosophila neuromuscular junction
Julie Secombe, Helen M Belalcazar, Emily L Hendricks, Sumaira Zamurrad, Faith L.W. Liebl
The transcription factor CLAMP is required for neurogenesis in Drosophila melanogaster
Maria A. Tsiarli, Ashley M. Conard, Lucy Xu, Erica Nguyen, Erica N. Larschan
Single-cell transcriptomes of developing and adult olfactory receptor neurons in Drosophila
Colleen N. McLaughlin, Maria Brbić, Qijing Xie, Tongchao Li, Felix Horns, Sai Saroja Kolluru, Justus M. Kebschull, David Vacek, Anthony Xie, Jiefu Li, Robert C. Jones, Jure Leskovec, Steven R. Quake, Liqun Luo, Hongjie Li
Global regulatory transitions at core promoters demarcate the mammalian germline cycle
Nevena Cvetesic, Malgorzata Borkowska, Yuki Hatanaka, Harry G Leitch, Ferenc Mueller, Changwei Yu, Stephane D Vincent, Laszlo Tora, Petra Hajkova, Boris Lenhard
Haploid mouse germ cell precursors from embryonic stem cells reveal Xist activation from a single X chromosome
Eishi Aizawa, Corinne Kaufmann, Sarah Sting, Remo Freimann, Anton Wutz
Precision of Tissue Patterning is Controlled by Dynamical Properties of Gene Regulatory Networks
Katherine Exelby, Edgar Herrera-Delgado, Lorena Garcia Perez, Ruben Perez-Carrasco, Andreas Sagner, Vicki Metzis, Peter Sollich, James Briscoe
System-level analyses of keystone genes required for mammalian tooth development
Outi Hallikas, Rishi Das Roy, Mona M. Christensen, Elodie Renvoisé, Ana-Marija Sulic, Jukka Jernvall
Implantation and Gastrulation Abnormalities Characterize Early Embryonic Lethal Mouse Lines
Yeonsoo Yoon, Joy Riley, Judith Gallant, Ping Xu, Jaime A. Rivera-Pérez
RNA-binding protein Elavl1/HuR is required for maintenance of cranial neural crest specification
Erica J. Hutchins, Jose Chacon, Marianne E. Bronner
Olig3 acts as a master regulator of cerebellar development
Elijah D. Lowenstein, Aleksandra Rusanova, Jonas Stelzer, Marc Hernaiz-Llorens, Adrian E. Schroer, Ekaterina Epifanova, Francesca Bladt, Eser Göksu Isik, Shiqi Jia, Victor Tarabykin, Luis R. Hernandez-Miranda
The transcription factor BCL11A defines a distinctive subset of dopamine neurons in the developing and adult midbrain
Marianna Tolve, Ayse Ulusoy, Khondker Ushna Sameen Islam, Gabriela O. Bodea, Ece Öztürk, Bianca Broske, Astrid Mentani, Antonia Wagener, Karen van Loo, Stefan Britsch, Pengtao Liu, Walid Khaled, Stephan Baader, Donato A. Di Monte, Sandra Blaess
Unraveling the transcriptional networks that drive oligodendrocyte fate specification in Sonic hedgehog-responsive neocortical progenitors
Caitlin C. Winkler, Luuli N. Tran, Ellyn P. Milan, Fernando García-Moreno, Santos J. Franco
THAP1 Modulates Oligodendrocyte Maturation by Regulating ECM Degradation in Lysosomes
Dhananjay Yellajoshyula, Samuel S. Pappas, Abigail Rogers, Biswa Choudhury, Xylena Reed, Jinhui Ding, Mark R. Cookson, Vikram Shakkottai, Roman Giger, William T. Dauer
Transcriptome profiling of the Olig2-expressing astrocyte subtype reveals their unique molecular signature
David Ohayon, Marion Aguirrebengoa, Nathalie Escalas, Cathy Soula
Repression of lysosomal transcription factors Tfeb and Tfe3 is essential for the development and function of microglia
Harini Iyer, Kimberle Shen, Ana M. Meireles, William S. Talbot
Epigenetic mechanisms mediating cell state transitions in chondrocytes.
Manuela Wuelling, Christoph Neu, Andrea M. Thiesen, Simo Kitanovski, Yingying Cao, Anja Lange, Astrid M. Westendorf, Daniel Hoffmann, Andrea Vortkamp
Single cell transcriptional and functional analysis of human dopamine neurons in 3D fetal ventral midbrain organoid like cultures
Marcella Birtele, Yogita Sharma, Petter Storm, Janko Kajtez, Jenny Nelander Wahlestedt, Edoardo Sozzi, Fredrik Nilsson, Simon Stott, Xiaoling L He, Bengt Mattsson, Daniella Rylander Ottosson, Roger A Barker, Alessandro Fiorenzano, Malin Parmar
Single cell transcriptomic analysis reveals the impact of elevating neurogenic factor expression on human retinal organoid development
Xiangmei Zhang, Igor Mandric, Kevin H. Nguyen, Thao T. T. Nguyen, Matteo Pellegrini, James C. R. Grove, Steven Barnes, Xian-Jie Yang
Single-Cell Transcriptomic Analysis Reveals Molecular Diversity of Human Oligodendrocyte Progenitor Cells
Xitiz Chamling, Alyssa Kallman, Cindy Berlinicke, Prajwal Devkota, Joseph L. Mertz, Calvin Chang, Aniruddha Kaushik, Liben Chen, Peter A. Calabresi, Hai-Quan Mao, Tza-Huei Wang, Donald J. Zack
Hmx3a has essential functions in zebrafish spinal cord, ear and lateral line development
Samantha J. England, Gustavo A. Cerda, Angelica Kowalchuk, Taylor Sorice, Ginny Grieb, Katharine E. Lewis
Cohesin components Stag1 and Stag2 differentially influence haematopoietic mesoderm development in zebrafish embryos
Sarada Ketharnathan, Anastasia Labudina, Julia A. Horsfield
The lncRNA MARS modulates the epigenetic reprogramming of the marneral cluster in response to ABA
Thomas Roulé, Federico Ariel, Caroline Hartmann, Jose Gutierrez-Marcos, Nosheen Hussain, Martin Crespi, Thomas Blein
scATAC-Seq reveals epigenetic heterogeneity associated with an EMT-like process in male germline stem cells and its regulation by G9a
Jinyue Liao, Hoi Ching Suen, Alfred Chun Shui Luk, Annie Wing Tung Lee, Judy Kin Wing Ng, Ting Hei Thomas Chan, Man Yee Cheung, David Yiu Leung Chan, Tin Chiu Li, Huayu Qi, Wai Yee Chan, Robin M. Hobbs, Tin-Lap Lee
Genomic properties of variably methylated retrotransposons in mouse
Jessica L. Elmer, Amir D. Hay, Noah J. Kessler, Tessa M. Bertozzi, Eve Ainscough, Anne C. Ferguson-Smith
An Eutherian-Specific microRNA Controls the Translation of Satb2 in a Model of Cortical Differentiation
Manuella Martins, Silvia Giulia Galfrè, Marco Terrigno, Luca Pandolfini, Irene Appolloni, Keagan Dunville, Andrea Marranci, Milena Rizzo, Alberto Mercatanti, Laura Poliseno, Francesco Morandin, Marco Pietrosanto, Manuela Helmer-Citterich, Paolo Malatesta, Robert Vignali, Federico Cremisi
LncRNA Snhg1-driven self-reinforcing regulatory network promotes cardiomyocyte cytokinesis
Mengsha Li, Hao zheng, Yijin Chen, Bing Li, Guojun Chen, Xiaoqiang Chen, Senlin Huang, Xiang He, Guoquan Wei, Tong Xu, Xiaofei Feng, Wangjun Liao, Yulin Liao, Yanmei Chen, Jianping Bin
Dysregulated gene expression of imprinted and X-linked genes: a link to poor development of bovine haploid androgenetic embryos
Luis Aguila, Jacinthe Therrien, Joao Suzuki, Mónica García, Amanda Trindade, Lawrence C. Smith
X chromosome-dependent disruption of placental regulatory networks in hybrid dwarf hamsters
Thomas D. Brekke, Emily C. Moore, Shane C. Campbell-Staton, Colin M. Callahan, Zachary A. Cheviron, Jeffrey M. Good
Maternal transmission of a paramutant phenotype requires intact DNMT2 functions in the male germline
Tian Yu, Yeming Xie, Chong Tang, Yue Wang, Shuiqiao Yuan, Huili Zheng, Wei Yan
| Stem cells, regeneration & disease modelling
Time-course single-cell RNA sequencing reveals transcriptional dynamics and heterogeneity of limbal stem cells derived from human pluripotent stem cells
Changbin Sun, Hailun Wang, Qiwang Ma, Chao Chen, Jianhui Yue, Bo Li, Xi Zhang
Dot1L methyltransferase activity is a barrier to acquisition of pluripotency but not transdifferentiation
Coral K. Wille, Rupa Sridharan
Spatial Heterogeneity of Delta-like 4 Within a Multinucleated Niche Cell Maintains Muscle Stem Cell Diversity
Susan Eliazer, Xuefeng Sun, Andrew S. Brack
Self-Organizing 3D Human Choroid Plexus-Ventricle-Cortical Organoids
Mohammed R. Shaker, Justin Cooper-White, Ernst J. Wolvetang
TWIST1 controls cellular senescence and energy metabolism in mesenchymal stem cells
Chantal Voskamp, Laura A. Anderson, Wendy J. L. M. Koevoet, Sander Barnhoorn, Pier G. Mastroberardino, Gerjo J.V.M. van Osch, Roberto Narcisi
Selective translation of epigenetic modifiers drives the developmental clock of neural stem cells
Quan Wu, Yuichi Shichino, Takaya Abe, Taeko Suetsugu, Ayaka Omori, Hiroshi Kiyonari, Shintaro Iwasaki, Fumio Matsuzaki
Human Naïve Epiblast Cells Possess Unrestricted Lineage Potential
Ge Guo, Giuliano Giuseppe Stirparo, Stanley Strawbridge, Daniel Spindlow, Jian Yang, James Clarke, Anish Dattani, Ayaka Yanagida, Meng Amy Li, Sam Myers, Buse Nurten Özel, Jennifer Nichols, Austin Smith
p107 mediated mitochondrial function controls muscle stem cell proliferative fates
Debasmita Bhattacharya, Oreoluwa Oresajo, Anthony Scimè
Gene regulatory network (GRN) embedded agents connect cellular decision making to human pluripotent stem cell derived germ layer-like pattern formation
Himanshu Kaul, Nicolas Werschler, Mukul Tewary, Andrew Hagner, Joel Ostblom, Daniel Aguilar-Hidalgo, Peter W. Zandstra
CTCF-binding element regulates ESC differentiation via orchestrating long-range chromatin interaction between enhancers and HoxA
Guangsong Su, Wenbin Wang, Jun Chen, Man Liu, Jian Zheng, Dianhao Guo, Jinfang Bi, Zhongfang Zhao, Jiandang Shi, Lei Zhang, Wange Lu
A Library of Induced Pluripotent Stem Cells from Clinically Well-Characterized, Diverse Healthy Human Individuals
Christoph Schaniel, Priyanka Dhanan, Bin Hu, Yuguang Xiong, Teeya Raghunandan, David M. Gonzalez, Sunita L. D’Souza, Arjun Yadaw, Jens Hansen, Gomathi Jayaraman, Bino Mathew, Moara Machado, Seth Berger, Joseph Tripodi, Vesna Najfeld, Jalaj Garg, Marc Miller, Colleen Lynch, Katherine Michelis, Neelima Tangirala, Himali Weerahandi, David C. Thomas, Robert Sebra, Milind Mahajan, Eric Schadt, Dusica Vidovic, Stephan C Schürer, Joseph Goldfarb, Evren U. Azeloglu, Marc R. Birtwistle, Eric A. Sobie, Jason C. Kovacic, Nicole C. Dubois, Ravi Iyengar
SIRT1 activity orchestrates ECM expression during hESC-chondrogenic differentiation
Christopher A Smith, Paul A Humphreys, Nicola Bates, Mark A Naven, Stuart A Cain, Mona Dvir-Ginzberg, Susan J Kimber
Metformin alleviates aging-associated cellular senescence of human adipose stem cells and derived adipocytes
Matthieu Mantecon, Laura Le Pelletier, Jennifer Gorwood, Martine Auclair, Michael Atlan, Bruno Fève, Jacqueline Capeau, Claire Lagathu, Véronique Béréziat
A Wnt5a-Cdc42 axis controls aging and rejuvenation of hair-follicle stem cells
Rajiv L Tiwari, Pratibha Mishra, Nicola Martin, Nikhil Oommen George, Vadim Sakk, Karin Soller, Kodandaramireddy Nalapareddy, Kalpana Nattamai, Karin Scharffetter-Kochanek, Maria Carolina Florian, Hartmut Geiger
Using single-cell entropy to describe the dynamics of reprogramming and differentiation of induced pluripotent stem cells
Yusong Ye, Zhuoqin Yang, Meixia Zhu, Jinzhi Lei
Novel epigenetic clock for fetal brain development predicts fetal epigenetic age for iPSCs and iPSC-derived neurons
Leonard C. Steg, Gemma L. Shireby, Jennifer Imm, Jonathan P. Davies, Robert Flynn, Seema C. Namboori, Akshay Bhinge, Aaron R. Jeffries, Joe Burrage, Grant W. A. Neilson, Emma M. Walker, Leo W. Perfect, Jack Price, Nicholas J. Bray, Emma L. Cope, Kimberly M. Jones, Nicholas D. Allen, Ehsan Pishva, Jonathan Mill, Katie Lunnon, Eilis Hannon
Sirt1 mediated regulation of p107 mitochondrial function controls muscle stem cell proliferative fates
Debasmita Bhattacharya, Oreoluwa Oresajo, Anthony Scimè
Derivation of Isogenic Mesodermal and Ectomesodermal Chondrocytes from Human Induced Pluripotent Stem Cells for Articular Cartilage Regeneration
Ming-Song Lee, Matthew J. Stebbins, Hongli Jiao, Hui-Ching Huang, Brian E. Walzack, Sean P. Palecek, Eric V. Shusta, Wan-Ju Li
Cathepsin K maintains the number of lymphocytes in vivo
Renate Hausinger, Marianne Hackl, Ana Jardon-Alvarez, Miriam Kehr, Sandra Romero Marquez, Franziska Hettler, Christian Kehr, Sandra Grziwok, Christina Schreck, Christian Peschel, Rouzanna Istvanffy, Robert A.J. Oostendorp
Derivation of human extended pluripotent stem cells in feeder-free condition
Ran Zheng, Ting Geng, Dan-Ya Wu, Tianzhe Zhang, Hai-Nan He, Liyan Wang, Haining Du, Donghui Zhang, Yi-Liang Miao, Wei Jiang
Early Stem Cell Aging in the Mature Brain
Albina Ibrayeva, Maxwell Bay, Elbert Pu, David Jörg, Lei Peng, Heechul Jun, Naibo Zhang, Daniel Aaron, Congrui Lin, Galen Resler, Axel Hidalgo, Mi-Hyeon Jang, Benjamin D. Simons, Michael A. Bonaguidi
Cell size is a determinant of stem cell potential during aging
Jette Lengefeld, Chia-Wei Cheng, Pema Maretich, Melanie R. McReynolds, Marguerite Blair, Hannah Hagen, Emily J Sullivan, Kyra Majors, Christina Roberts, Joon Ho Kang, Joachim Steiner, Teemu P Miettinen, Scott Manalis, Adam Antebi, Jacqueline Lees, Laurie Boyer, Omer H. Yilmaz, Angelika Amon
Integrity of the short arm of nuclear pore Y-complex is required for mouse embryonic stem cell growth and differentiation
Alba GONZALEZ-ESTEVEZ, Annalisa VERRICO, Clarisse ORNIACKI, Bernardo REINA-SAN-MARTIN, Valérie DOYE
Otx2 stimulates adult retinal ganglion cell regeneration
Raoul Torero-Ibad, Nicole Quenech’du, Alain Prochiantz, Kenneth L. Moya
Regulation of retinal amacrine cell generation by miR-216b and Foxn3
Huanqing Zhang, Pei Zhuang, Ryan M. Welchko, Manhong Dai, Fan Meng, David L. Turner
Müller Glia regenerative potential is maintained throughout life despite neurodegeneration and gliosis in the ageing zebrafish retina
Raquel R. Martins, Mazen Zamzam, Mariya Moosajee, Ryan Thummel, Catarina M. Henriques, Ryan B. MacDonald
Morphine alleviates pain after heart cryoinjury in zebrafish without impeding regeneration
Sara Lelek, Mariana Guedes Simões, Bo Hu, Ahmed M.A. Alameldeen, Maciej T. Czajkowski, Alexander M. Meyer, Fabienne Ferrara, Jan Philipp Junker, Daniela Panáková
Endogenous Galectin-3 is Required for Skeletal Muscle Repair
Daniel Giuliano Cerri, Lilian Cataldi Rodrigues, Vani Maria Alves, Juliano Machado, Víctor Alexandre Félix Bastos, Isis do Carmo Kettelhut, Luciane Carla Alberici, Sean R. Stowell, Maria Cristina R. Costa, Richard D. Cummings, Marcelo Dias-Baruffi
The transcriptome of regenerating zebrafish scales identifies genes involved in human bone disease
Dylan J.M. Bergen, Qiao Tong, Ankit Shukla, Elis Newman, Jan Zethof, Mischa Lundberg, Rebecca Ryan, Scott E. Youlten, Eleftheria Zeggini, Peter I. Croucher, Gert Flik, Rebecca J. Richardson, John P. Kemp, Chrissy L. Hammond, Juriaan R. Metz
Prednisolone rescues Duchenne Muscular Dystrophy phenotypes in human pluripotent stem cells-derived skeletal muscle in vitro
Ziad Al Tanoury, John F. Zimmermann, Jyoti Rao, Daniel Siero, Harry McNamara, Thomas Cherrier, Aurore Hick, Fanny Bousson, Charlotte Fugier, Fabio Marchiano, Bianca Habermann, Jérome Chal, Alexander P. Nesmith, Svetlana Gapon, Erica Wagner, Rhonda Bassel-Duby, Eric Olson, Adam E. Cohen, Kevin Kit Parker, Olivier Pourquié
Abnormal craniofacial and spinal bone development with col2a1a depletion in a zebrafish model of CHARGE syndrome
Maximilian Breuer, Maximilian Rummler, Charlotte Zaouter, Bettina M. Willie, Shunmoogum A. Patten
Morphological study of embryonic Chd8+/- mouse brains using light-sheet microscopy
Harold F. Gómez, Leonie Hodel, Odyssé Michos, Dagmar Iber
Aberrant Epithelial Differentiation Contributes to Pathogenesis in a Murine Model of Congenital Tufting Enteropathy
Barun Das, Kevin Okamoto, John Rabalais, Jocelyn Young, Kim E. Barrett, Mamata Sivagnanam
Lis1 mutation prevents basal radial glia-like cell production in the mouse
Maxime Penisson, Shinji Hirotsune, Fiona Francis, Richard Belvindrah
Cortical Organoids Model Early Brain Development Disrupted by 16p11.2 Copy Number Variants in Autism
Jorge Urresti, Pan Zhang, Patricia Moran-Losada, Nam-Kyung Yu, Priscilla D. Negraes, Cleber A. Trujillo, Danny Antaki, Megha Amar, Kevin Chau, Akula Bala Pramod, Jolene Diedrich, Leon Tejwani, Sarah Romero, Jonathan Sebat, John R. Yates III, Alysson R. Muotri, Lilia M. Iakoucheva
A CRISPR-Cas9–engineered mouse model for GPI-anchor deficiency mirrors human phenotypes and exhibits hippocampal synaptic dysfunctions
Miguel Rodríguez de los Santos, Marion Rivalan, Friederike S. David, Alexander Stumpf, Julika Pitsch, Despina Tsortouktzidis, Laura Moreno Velasquez, Anne Voigt, Karl Schilling, Daniele Mattei, Melissa Long, Guido Vogt, Alexej Knaus, Björn Fischer-Zirnsak, Lars Wittler, Bernd Timmermann, Peter N. Robinson, Denise Horn, Stefan Mundlos, Uwe Kornak, Albert J. Becker, Dietmar Schmitz, York Winter, Peter M. Krawitz
Patient iPSC-astrocytes show transcriptional and functional dysregulation in schizophrenia
Marja Koskuvi, Šárka Lehtonen, Kalevi Trontti, Meike Keuters, Ying Chieh Wu, Hennariikka Koivisto, Anastasia Ludwig, Lidiia Plotnikova, Pekka L. J. Virtanen, Noora Räsänen, Satu Kaipainen, Ida Hyötyläinen, Hiramani Dhungana, Raisa Giniatullina, Ilkka Ojansuu, Olli Vaurio, Tyrone D. Cannon, Jouko Lönnqvist, Sebastian Therman, Jaana Suvisaari, Jaakko Kaprio, Markku Lähteenvuo, Jussi Tohka, Rashid Giniatullin, Claudio Rivera, Iiris Hovatta, Heikki Tanila, Jari Tiihonen, Jari Koistinaho
A Rat Model of a Focal Mosaic Expression of PCDH19 Replicates Human Brain Developmental Abnormalities and Behaviors
Andrzej W Cwetsch, Roberto Narducci, Maria Bolla, Bruno Pinto, Laura Perlini, Silvia Bassani, Maria Passafaro, Laura Cancedda
Regulation of intracellular signaling and neuron function by Bardet-Biedl Syndrome proteins in patient-specific iPSC-derived neurons
Liheng Wang, Yang Liu, George Stratigopoulos, Sunil Panigrahi, Lina Sui, Charles A. Leduc, Hannah J. Glover, Maria Caterina De Rosa, Lisa C. Burnett, Damian J. Williams, Linshan Shang, Robin Goland, Stephen H. Tsang, Sharon Wardlaw, Dieter Egli, Deyou Zheng, Claudia A. Doege, Rudolph L. Leibel
| Plant development
Control of Vein-Forming, Striped Gene-Expression by Auxin Signaling
Anmol Krishna, Jason Gardiner, Tyler J. Donner, Enrico Scarpella
A novel family of secreted proteins linked to plant gall development
Aishwarya Korgaonkar, Clair Han, Andrew L. Lemire, Igor Siwanowicz, Djawed Bennouna, Rachel Kopec, Peter Andolfatto, Shuji Shigenobu, David L. Stern
The interplay of HSP90s with YDA regulates main body axis formation during early embryogenesis in Arabidopsis
Despina Samakovli, Tereza Tichá, Tereza Vavrdová, Natálie Závorková, Ales Pecinka, Miroslav Ovečka, Jozef Šamaj
Local auxin biosynthesis promotes shoot patterning and stem cell differentiation in Arabidopsis shoot apex
Shalini Yadav, Harish Kumar, Ram Kishor Yadav
nMAT3 is an essential maturase splicing factor required for holo-complex I biogenesis and embryo-development in Arabidopsis thaliana plants
Sofia Shevtsov-Tal, Corinne Best, Roei Matan, Sam Aldrin Chandran, Gregory G. Brown, Oren Ostersetzer-Biran
doi: https://doi.org/10.1101/20
A single cell view of the transcriptome during lateral root initiation in Arabidopsis thaliana
Hardik P. Gala, Amy Lanctot, Ken Jean-Baptiste, Sarah Guiziou, Jonah C. Chu, Joseph E. Zemke, Wesley George, Christine Queitsch, Josh T. Cuperus, Jennifer L. Nemhauser
Auxin guides germ cell specification in Arabidopsis anthers
Yafeng Zheng, Donghui Wang, Sida Ye, Wenqian Chen, Guilan Li, Zhihong Xu, Shunong Bai, Feng Zhao
Jasmonate biosynthesis arising from altered cell walls is prompted by turgor-driven mechanical compression and guides root hydrotropism
Stefan Mielke, Marlene Zimmer, Mukesh Kumar Meena, René Dreos, Hagen Stellmach, Bettina Hause, Cătălin Voiniciuc, Debora Gasperini
PSK signaling controls ABA homeostasis and promotes shoot growth under mannitol stress
Martina D. Schönhof, Komathy Rajamanickam, Bettina Hause, Margret Sauter
DET1-mediated COP1 regulation avoids HY5 activity over second-site targets to tune plant photomorphogenesis
Esther Cañibano, Clara Bourbousse, Marta Garcia-Leon, Lea Wolff, Camila Garcia-Baudino, Fredy Barneche, Vicente Rubio, Sandra Fonseca
HEXOKINASE1 interferes with cytokinin synthesis and strigolactone perception during sugar-induced shoot branching
Francois F. Barbier, Da Cao, Franziska Fichtner, Christoph Weiste, Maria-Dolores Perez-Garcia, Mathieu Caradeuc, José Le gourrierec, Soulaiman Sakr, Christine A. Beveridge
Momilactone B inhibits Arabidopsis growth and development via disruption of ABA and auxin signaling
Jianxin Wu, Jun Long, Xianhui Lin, Zhenyi Chang, Scott R. Baerson, Chaohui Ding, Xiaoyan Wu, Zhiqiang Pan, Yuanyuan Song, Rensen Zeng
The Polycomb group protein MEDEA controls cell proliferation and embryonic patterning in Arabidopsis
Sara Simonini, Marian Bemer, Stefano Bencivenga, Valeria Gagliardini, Nuno D. Pires, Bénédicte Desvoyes, Eric van der Graaff, Crisanto Gutierrez, Ueli Grossniklaus
The auxin transporter PIN1 and the cytokinin transporter AZG1 interact to regulate the root stress response
TM Tessi, M Shahriari, VG Maurino, E Meissner, O Novak, T Pasternak, BS Schumacher, NS Flubacher, M Nautscher, A Williams, Z Kazimierczak, M Strnad, JO Thumfart, K Palme, M Desimone, WD Teale
Life cycle of arabidopsis in the international space station – Growth direction of the inflorescence stems in the presence of light under microgravity
Umi Yashiro, Ichirou Karahara, Sachiko Yano, Daisuke Tamaoki, Fumiaki Tanigaki, Toru Shimazu, Daisuke Masuda, Haruo Kasahara, Seiichiro Kamisaka
Changes in the plasmodesma structure and permeability at the bundle sheath and mesophyll interface during the maize C4 leaf development
Peng Gao, Baijuan Du, Pinghua Li, Byung-Ho Kang
WHIRLY1 of barley and maize share a PRAPP motif conferring nucleoid compaction
Svenja Oetke, Axel J. Scheidig, Karin Krupinska
A cis-regulatory atlas in maize at single-cell resolution
Alexandre P. Marand, Zongliang Chen, Andrea Gallavotti, Robert J. Schmitz
Temporal changes in metabolism late in seed development affect biomass composition in soybean
Shrikaar Kambhampati, Jose A. Aznar-Moreno, Sally R. Bailey, Jennifer J. Arp, Kevin L. Chu, Kristin D. Bilyeu, Timothy P. Durrett, Doug K Allen
Expression of TaTAR2.3-1B, TaYUC9-1 and TaYUC10 correlates with auxin and starch content of developing wheat grains
Muhammed Rezwan Kabir, Heather M Nonhebel, David Backhouse, Gal Winter
Reinvestigation of grain weight genes TaTGW6 and OsTGW6 casts doubt on their role in auxin regulation in developing grains
Muhammed Rezwan Kabir, Heather M. Nonhebel
Transcriptomic Analyses Throughout Chili Pepper Fruit Development Reveal Novel Insights into Domestication Process
Octavio Martínez, Magda L. Arce-Rodríguez, Fernando Hernández-Godínez, Christian Escoto-Sandoval, Felipe Cervantes-Hernández, Corina Hayano-Kanashiro, José J. Ordaz-Ortiz, M. Humberto Reyes-Valdés, Fernando G. Razo-Mendivil, Ana Garcés-Claver, Neftalí Ochoa-Alejo
RNA-Seq Time Series of Vitis vinifera Bud Development Reveals Correlation of Expression Patterns with the Local Temperature Profile
Boas Pucker, Anna Schwandner, Sarah Becker, Ludger Hausmann, Prisca Viehöver, Reinhard Töpfer, Bernd Weisshaar, Daniela Holtgräwe
Spike development inhibition in the ftin mutant is associated with multiple phenotypes and regulated by multiple biological pathways
Yongsheng Zheng, Jinpeng Zhang, Cheng Liu, Han Zhang, Xiajie Ji, Mumu Wang, Hui wang, Rongzhi Zhang, Ruyu Li, Weihua Liu
LACCASE is Necessary for Root Development in Salvia miltiorrhiza
Zheng Zhou, Qing Li, Yun Wang, Liang Xiao, Qitao Bu, Kai Hao, Meili Guo, Wansheng Chen, Lei Zhang
3D-Construction of Vasculature of Anaxagorea and its Implications in the Integrated Axial-Foliar Origin of the Angiosperm Carpel
Ya Li, Wei Du, Shuai Wang, Xiao-Fan Wang, Ye Chen
PHYTOCHROMES B1/B2 ARE KEY REGULATORS OF EPIGENOME REPROGRAMMING DURING TOMATO FRUIT DEVELOPMENT
Ricardo Bianchetti, Nicolas Bellora, Luis de Haro, Rafael Zuccarelli, Daniele Rosado, Luciano Freschi, Magdalena Rossi, Luisa F Bermudez
Evo-devo & evo
Post-metamorphic skeletal growth in the sea urchin Paracentrotus lividus and implications for body plan evolution
Jeffrey R. Thompson, Periklis Paganos, Giovanna Benvenuto, Maria Ina Arnone, Paola Oliveri
Single-cell analysis of cell fate bifurcation in the chordate Ciona
Konner M. Winkley, Wendy M. Reeves, Michael T. Veeman
Resolving transcriptional states and predicting lineages in the annelid Capitella teleta using single-cell RNAseq
Abhinav Sur, Néva P. Meyer
Striking parallels between dorsoventral patterning in Drosophila and Gryllus reveal a complex evolutionary history behind a model gene regulatory network
Matthias Pechmann, Nathan James Kenny, Laura Pott, Peter Heger, Yen-Ta Chen, Thomas Buchta, Orhan Özüak, Jeremy Lynch, Siegfried Roth
Comparative transcriptomics reveal distinct patterns of gene expression conservation through vertebrate embryogenesis
Megan E Chan, Pranav S. Bhamidipati, Heather J Goldsby, Arend Hintze, Hans A Hofmann, Rebecca L Young
Embryological manipulation to probe early evo-devo in the fish Astyanax mexicanus
Jorge Torres-Paz, Sylvie Rétaux
Human-specific ARHGAP11B is necessary and sufficient for human-type basal progenitor levels in primate brain organoids
Jan Fischer, Jula Peters, Takashi Namba, Wieland B. Huttner, Michael Heide
Selection for increased tibia length in mice alters skull shape through parallel changes in developmental mechanisms
Colton M. Unger, Jay Devine, Benedikt Hallgrímsson, Campbell Rolian
New Genes in Drosophila Quickly Evolved Essential Functions in Viability During Development
Shengqian Xia, Nicholas W VanKuren, Chunyan Chen, Li Zhang, Clause Kemkemer, Yi Shao, Hangxing Jia, UnJin Lee, Alexander S Advani, Andrea Gschwend, Maria Vibranovski, Sidi Chen, Yong E Zhang, Manyuan Long
A 180 My-old female-specific genome region in sturgeon reveals the oldest known vertebrate sex determining system with undifferentiated sex chromosomes
Heiner Kuhl, Yann Guiguen, Christin Höhne, Eva Kreuz, Kang Du, Christophe Klopp, Céline Lopez-Roques, Elena Santidrian Yebra-Pimentel, Mitica Ciorpac, Jörn Gessner, Daniela Holostenco, Wibke Kleiner, Klaus Kohlmann, Dunja K. Lamatsch, Dmitry Prokopov, Anastasia Bestin, Emmanuel Bonpunt, Bastien Debeuf, Pierrick Haffray, Romain Morvezen, Pierre Patrice, Radu Suciu, Ron Dirks, Sven Wuertz, Werner Kloas, Manfred Schartl, Matthias Stöck
Cell biology
Cortical myosin minifilaments orchestrate the arrangement of microridge protrusions on epithelial cell surfaces
Aaron P. van Loon, Ivan S. Erofeev, Andrew B. Goryachev, Alvaro Sagasti
RhoA- and Ran-induced antagonistic forces underlie symmetry breaking and spindle rotation in mouse oocytes
Benoit Dehapiot, Raphaël Clément, Anne Bourdais, Sébastien Huet, Guillaume Halet
The prophase oocyte nucleus is a homeostatic G-actin buffer
Kathleen Scheffler, Federica Giannini, Binyam Mogessie
Non-rodent mammalian zygotes assemble dual spindles despite the presence of paternal centrosomes
Isabell Schneider, Marta de Ruijter-Villani, M. Julius Hossain, Tom A. E. Stout, Jan Ellenberg
Phospho-regulated auto-inhibition of Cnn controls microtubule nucleation during cell division
Corinne A. Tovey, Chisato Tsuji, Alice Egerton, Fred Bernard, Antoine Guichet, Marc de la Roche, Paul T. Conduit
Native cyclase-associated protein and actin from Xenopus laevis oocytes form a 4:4 complex with a tripartite structure
Noriyuki Kodera, Hiroshi Abe, Shoichiro Ono
Dynein-dynactin segregate meiotic chromosomes in C. elegans spermatocytes
Daniel J. Barbosa, Vanessa Teixeira, Joana Duro, Ana X. Carvalho, Reto Gassmann
Modelling
Role of cell polarity dynamics and motility in pattern formation due to contact dependent signalling
Supriya Bajpai, Ranganathan Prabhakar, Raghunath Chelakkot, Mandar M. Inamdar
A model of developmental canalization, applied to human cranial form
Philipp Mitteroecker, Ekaterina Stansfield
Effective mechanical potential of cell–cell interaction explains basic structures of three-dimensional morphogenesis
Hiroshi Koyama, Hisashi Okumura, Atsushi M. Ito, Tetsuhisa Otani, Kazuyuki Nakamura, Kagayaki Kato, Toshihiko Fujimori
Understanding the Human Brain using Brain Organoids and a Structure-Function Theory
Gabriel A. Silva, Alysson R. Muotri, Christopher White
Stochastic stem cell models with mutation: A comparison of asymmetric and symmetric divisions
Zhijie Wu, Yuman Wang, Kun Wang, Da Zhou
An introduction to the mathematical modelling of iPSCs
Laura E Wadkin, Sirio Orozco-Fuentes, Irina Neganova, Majlinda Lako, Nicholas G Parker, Anvar Shukurov
Tools & resources
Comprehensive characterization of migration profiles of murine cerebral cortical neurons during development using FlashTag labeling
Satoshi Yoshinaga, Minkyung Shin, Ayako Kitazawa, Kazuhiro Ishii, Masato Tanuma, Atsushi Kasai, Hitoshi Hashimoto, Ken-ichiro Kubo, Kazunori Nakajima
Deep Collection of Quantitative Nuclear Division Dynamics Data in RNAi-treated Caenorhabditis elegans Embryos
Koji Kyoda, Hatsumi Okada, Hiroya Itoga, Shuichi Onami
Evaluation of CRISPR gene-editing tools in zebrafish identifies spurious mutations in ‘mock’ control embryos
José M. Uribe-Salazar, Aadithya Sekar, Gulhan Kaya, KaeChandra Weyenberg, Cole Ingamells, Megan Y. Dennis
Tissue-specific transcription footprinting using RNA PoI DamID (RAPID) in C. elegans
Georgina Gómez-Saldivar, Jaime Osuna-Luque, Jennifer I. Semple, Dominique A. Glauser, Sophie Jarriault, Peter Meister
High-throughput phenotypic characterization of zebrafish CRISPR mutants of DNA repair genes
Unbeom Shin, Khriezhanuo Nakhro, Chang-Kyu Oh, Blake Carrington, Hayne Song, Gaurav Varshney, Youngjae Kim, Hyemin Song, Sangeun Jeon, Gabrielle Robbins, Sangin Kim, Suhyeon Yoon, Yongjun Choi, Suhyung Park, Yoo Jung Kim, Shawn Burgess, Sukhyun Kang, Raman Sood, Yoonsung Lee, Kyungjae Myung
Evaluating CRISPR-based Prime Editing for cancer modeling and CFTR repair in intestinal organoids
Maarten H. Geurts, Eyleen de Poel, Cayetano Pleguezuelos-Manzano, Léo Carrillo, Amanda Andersson-Rolf, Matteo Boretto, Jeffrey M. Beekman,
Frequent loss-of-heterozygosity in CRISPR-Cas9-edited early human embryos
Gregorio Alanis-Lobato, Jasmin Zohren, Afshan McCarthy, Norah M. E. Fogarty, Nada Kubikova, Emily Hardman, Maria Greco, Dagan Wells, James M.A. Turner, Kathy Niakan
Evaluating spiny mice (Acomys) as a model for cardiac research
Kazuhiro Shindo, Hsuan Peng, Renée R. Donahue, Brooke M. Ahern, Bryana M. Levitan, Jonathan Satin, Ashley W. Seifert, Ahmed Abdel-Latif
Dehydrated Caenorhabditis elegans stocks are resistant to multiple freeze-thaw cycles
Patrick D. McClanahan, Richard J. McCloskey, Melanie Ng Tung Hing, David M. Raizen, Christopher Fang-Yen
Developing Human Pluripotent Stem Cell-Based Cerebral Organoids with a Controllable Microglia Ratio for Modeling Brain Development and Pathology
Ranjie Xu, Andrew J. Boreland, Xiaoxi Li, Caroline Erickson, Mengmeng Jin, Colm Atkins, Zhiping Pang, Brian P. Daniels, Peng Jiang
POLArIS, a versatile probe for molecular orientation, revealed actin filaments associated with microtubule asters in early embryos
Ayana Sugizaki, Keisuke Sato, Kazuyoshi Chiba, Kenta Saito, Masahiko Kawagishi, Yuri Tomabechi, Shalin B. Mehta, Hirokazu Ishii, Naoki Sakai, Mikako Shirouzu, Tomomi Tani, Sumio Terada
3D test sample for the calibration and quality control of super-resolution and confocal microscopes
Ernest B. van der Wee, Jantina Fokkema, Chris L. Kennedy, Marc del Pozo, D.A. Matthijs de Winter, Peter N.A. Speets, Hans C. Gerritsen, Alfons van Blaaderen
The ubiquitylome of developing cortical neurons
Shalini Menon, Dennis Goldfarb, Emily M. Cousins, M. Ben Major, Stephanie L. Gupton
Robust Optical Flow Algorithm for General, Label-free Cell Segmentation
Michael C Robitaille, Jeff M Byers, Joseph A Christodoulides, Marc P Raphael
Three-fluorophore FRET enables the analysis of ternary protein association in living plant cells
Nina Gloeckner, Sven zur Oven-Krockhaus, Leander Rohr, Frank Wackenhut, Moritz Burmeister, Friederike Wanke, Eleonore Holzwart, Alfred J. Meixner, Sebastian Wolf, Klaus Harter
A Transgenic System for Targeted Ablation of Reproductive and Maternal-Effect genes
Sylvain Bertho, Odelya Kaufman, KathyAnn Lee, Adrian Santos-Ledo, Daniel Dellal, Florence L. Marlow
Haplotype-phased common marmoset embryonic stem cells for genome editing using CRISPR/Cas9
Bo Zhou, Steve S. Ho, Louis C. Leung, Thomas R. Ward, Marcus Ho, Melanie J. Plastini, Scott C. Vermilyea, Marina E. Emborg, Thaddeus G. Golos, Megan A. Albertelli, Philippe Mourrain, Dimitri Perrin, Karen J. Parker, Alexander E. Urban
ESCO: single cell expression simulation incorporating gene co-expression
Jinjin Tian, Jiebiao Wang, Kathryn Roeder
Multi-modal imaging of a single postmortem mouse brain over five orders of magnitude of resolution
Sean Foxley, Vandana Sampathkumar, Vincent De Andrade, Scott Trinkle, Anastasia Sorokina, Katrina Norwood, Patrick La Riviere, Narayanan Kasthuri
A comprehensive overview of computational tools for RNA-seq analysis
Dhrithi Deshpande, Karishma Chhugani, Yutong Chang, Aaron Karlsberg, Caitlin Loeffler, Jinyang Zhang, Agata Muszynska, Jeremy Rotman, Laura Tao, Lana S. Martin, Brunilda Balliu, Elizabeth Tseng, Eleazar Eskin, Fangqing Zhao, Pejman Mohammadi, Pawel P Labaj, Serghei Mangul
CellCycleGAN: Spatiotemporal Microscopy Image Synthesis of Cell Populations using Statistical Shape Models and Conditional GANs
Dennis Bähr, Dennis Eschweiler, Anuk Bhattacharyya, Daniel Moreno-Andrés, Wolfram Antonin, Johannes Stegmaier
Split-HaloTag® Imaging Assay for Sophisticated Microscopy of Protein-Protein Interactions in planta
Rieke Minner-Meinen, Jan Niklas Weber, Andreas Albrecht, Rainer Matis, Maria Behnecke, Cindy Tietge, Stefan Frank, Jutta Schulze, Henrik Buschmann, Peter Jomo Walla, Ralf Rainer Mendel, Robert Haensch, David Kaufholdt
Research practice & education
Gender stereotype and the scientific career of women: Evidence from biomedical research centers
Jose G. Montalvo, Daniele Alimonti, Sonja Reiland, Isabelle Vernos
A laboratory module that explores RNA interference and codon optimization through fluorescence microscopy using Caenorhabditis elegans
Maryam A. Azmi, Nicholas J. Palmisano, Taylor N. Medwig-Kinney, Frances E. Moore, Rumana Rahman, Wan Zhang, Rebecca C. Adikes, David Q. Matus
A Structured Professional Development Curriculum for Postdoctoral Fellows Leads to Recognized Knowledge Growth
Kaylee Steen, Jay Vornhagen, Zara Y. Weinberg, Julie Boulanger-Bertolus, Arvind Rao, Margery Evans Gardner, Shoba Subramanian
Current practices in scientific poster preparation – survey results
Helena Jambor
Comparing quality of reporting between preprints and peer-reviewed articles in the biomedical literature
Clarissa F. D. Carneiro, Victor G. S. Queiroz, Thiago C. Moulin, Carlos A. M. Carvalho, Clarissa B. Haas, Danielle Rayêe, David E. Henshall, Evandro A. De-Souza, Felippe E. Amorim, Flávia Z. Boos, Gerson D. Guercio, Igor R. Costa, Karina L. Hajdu, Lieve van Egmond, Martin Modrák, Pedro B. Tan, Richard J. Abdill, Steven J. Burgess, Sylvia F. S. Guerra, Vanessa T. Bortoluzzi, Olavo B. Amaral
From amazing work to I beg to differ – analysis of bioRxiv preprints that received one public comment till September 2019
Mario Malički, Joseph Costello, Juan Pablo Alperin, Lauren A. Maggio
The Influence of bioRχiv on PLOS ONE’s Peer-Review and Acceptance Time
Hiroyuki Tsunoda, Yuan Sun, Masaki Nishizawa, Xiaomin Liu, Kou Amano
The impact of preprint servers in the formation of novel ideas
Swarup Satish, Zonghai Yao, Andrew Drozdov, Boris Veytsman
Racial and ethnic imbalance in neuroscience reference lists and intersections with gender
Maxwell A Bertolero, Jordan D Dworkin, Sophia U David, Claudia López Lloreda, Pragya Srivastava, Jennifer Stiso, Dale Zhou, Kafui Dzirasa, Damien A Fair, Antonia N Kaczkurkin, Bianca Jones Marlin, Daphna Shohamy, Lucina Q Uddin, Perry Zurn, Danielle S Bassett
Advancing science or advancing careers? Researchers’ opinions on success indicators
Noémie Aubert Bonn, Wim Pinxten
Positive outcomes of COVID-19 research-related gender policy changes
Holly O Witteman, Jenna Haverfield, Cara Tannenbaum
The data-index: an author-level metric that values impactful data and incentivises data sharing
Amelia S C Hood, William J Sutherland
Assessment of transparency indicators across the biomedical literature: how open is open?
Stylianos Serghiou, Despina G Contopoulos-Ioannidis, Kevin W Boyack, Nico Riedel, Joshua David Wallach, John P. A. Ioannidis
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